Hi Doug,
if we flip raw MR images (in a subset of subjects) and process them
through recon-all, we would end up registering left to right and right
to left hemisphere in these Ss. Shouldn't the error/quality then be
comparable on both hemispheres?! Within the whole group, these flipped
Ss may contribute to greater error variance in both hemispheres, but we
should still be able to interpret any group effects in any region... or
am I missing a point?
Best regards and thanks,
Kai
Douglas N Greve wrote:
Martin Reuter wrote:
I am not sure, but do you really want to register left to right within a
subject? From what I read, you want too pool the different types and
then compare the groups, right?
For that it should be enough to simply invert the images (left/right)
and process it through recon-all or just flip the surfaces, or am I
wrong?
This seemed like a good idea to me at first too. The problem is that
when you register both the left and right to the left hemi template, the
left registers better, so you end up with a systematic bias. And you get
different results if you register to the right hemi instead (very bad).
The right solution is to create a single atlas that consists of both lh
and rh targets. I have an alpha version of this, but I'm not ready to
distribute it yet.
doug
-Martin
On Thu, 2010-01-21 at 19:37 +0100, Jürgen Hänggi wrote:
Hi Bruce, Doug, and Mert
Thanks a lot
Regards
Jürgen
On [DATE], "Bruce Fischl" <[ADDRESS]> wrote:
I'll take that to mean "no,I don't have anything I am comfortable
distributing yet" :)
On Thu, 21 Jan 2010, Douglas N Greve wrote:
I've been working on this piece-meal. I think it's a bad idea to just throw
stuff out there without testing it. It will instantly become the standard and
then it will be a mess to try to undo.
Bruce Fischl wrote:
I see, so you don't want to flip it, you want to register left and right.
Mert and Doug: do either of you have stuff you would be comfortable
distributing yet?
On Thu, 21 Jan 2010, Jürgen Hänggi wrote:
Hi Bruce
We investigated patients with unilateral pain. For some patients, the pain
was on the left side, for others it was on the right side. We would like
to
do a group analysis on cortical thickness maps vertex-wisely but we do not
know whether it is possible to flip a surface model (e.g. the left
cortical
thickness map) so that we can pool patients with pain on the left with the
patients who have pain on the right.
Regards
Jürgen
On [DATE], "Bruce Fischl" <[ADDRESS]> wrote:
Hi Jürgen,
why would you flip the MR? What problem are you trying to solve?
Bruce
On Thu, 21
Jan 2010, Jürgen Hänggi wrote:
Dear FS experts
As far as I know from Doug, there are preliminary tools for flipping a
surface model (reversing left and right hemisphere)
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg11896.html
Because these tools are not yet available I would like to know whether
you
would recommend to flip the raw MR image and the running recon-all on
this
flipped MR image.
Thanks in advance
Best regards
Jürgen
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Division Neuropsychology
Institute of Psychology
University of Zurich
Binzmuehlestrasse 14, PO Box 25
8050 Zurich, Switzerland
0041 44 635 73 97 (phone office)
0041 76 445 86 84 (phone mobile)
0041 44 635 74 09 (fax office)
BIN 4.D.04 (office room number)
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Jürgen Hänggi, Ph.D.
Division Neuropsychology
Institute of Psychology
University of Zurich
Binzmuehlestrasse 14, PO Box 25
8050 Zurich, Switzerland
0041 44 635 73 97 (phone office)
0041 76 445 86 84 (phone mobile)
0041 44 635 74 09 (fax office)
BIN 4.D.04 (office room number)
j.haenggi[at]psychologie.uzh.ch (email)
http://www.psychologie.uzh.ch/neuropsy/ (website)
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